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Structure of MAf glycosyltransferase from Magnetospirillum magneticum AMB-1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.8 293 1.5-1.7 M (NH4)2SO4, 5% (v/v) polyethylene glycol 400 and 0.1 M MES buffer, pH 6.5-7.0
Crystal Properties Matthews coefficient Solvent content 3.21 62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 117.447 α = 90 b = 126.852 β = 90 c = 64.601 γ = 90
Symmetry Space Group P 21 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 2M 2014-10-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE MASSIF-1 0.966 ESRF MASSIF-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 2.3 45.3 99.8 0.085 0.04 12.8 5.1 43504 40.9
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.42 99.5 0.79 0.369 2.4 5.2 6235
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 2.3 45.3 41238 2224 99.46 0.18841 0.18671 0.1932 0.2202 0.2195 RANDOM 50.766
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] 2.57 -2.28 -0.29
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.18 r_dihedral_angle_4_deg 11.886 r_dihedral_angle_3_deg 11.469 r_dihedral_angle_1_deg 4.583 r_angle_refined_deg 1.389 r_angle_other_deg 0.759 r_chiral_restr 0.079 r_bond_refined_d 0.009 r_gen_planes_refined 0.005 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.18 r_dihedral_angle_4_deg 11.886 r_dihedral_angle_3_deg 11.469 r_dihedral_angle_1_deg 4.583 r_angle_refined_deg 1.389 r_angle_other_deg 0.759 r_chiral_restr 0.079 r_bond_refined_d 0.009 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5014 Nucleic Acid Atoms Solvent Atoms 98 Heterogen Atoms 46
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling CRANK phasing